PNP1_ORYSJ
ID PNP1_ORYSJ Reviewed; 902 AA.
AC Q69LE7; A0A0P0X2J5;
DT 28-NOV-2012, integrated into UniProtKB/Swiss-Prot.
DT 25-OCT-2004, sequence version 1.
DT 03-AUG-2022, entry version 121.
DE RecName: Full=Probable polyribonucleotide nucleotidyltransferase 1, chloroplastic;
DE EC=2.7.7.8;
DE AltName: Full=Polynucleotide phosphorylase 1;
DE Short=PNPase 1;
DE Flags: Precursor;
GN Name=PNP1; OrderedLocusNames=Os07g0168000, LOC_Os07g07310;
GN ORFNames=OSJNBa0050F10.4;
OS Oryza sativa subsp. japonica (Rice).
OC Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;
OC Spermatophyta; Magnoliopsida; Liliopsida; Poales; Poaceae; BOP clade;
OC Oryzoideae; Oryzeae; Oryzinae; Oryza; Oryza sativa.
OX NCBI_TaxID=39947;
RN [1]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=cv. Nipponbare;
RX PubMed=16100779; DOI=10.1038/nature03895;
RG International rice genome sequencing project (IRGSP);
RT "The map-based sequence of the rice genome.";
RL Nature 436:793-800(2005).
RN [2]
RP GENOME REANNOTATION.
RC STRAIN=cv. Nipponbare;
RX PubMed=18089549; DOI=10.1093/nar/gkm978;
RG The rice annotation project (RAP);
RT "The rice annotation project database (RAP-DB): 2008 update.";
RL Nucleic Acids Res. 36:D1028-D1033(2008).
RN [3]
RP GENOME REANNOTATION.
RC STRAIN=cv. Nipponbare;
RX PubMed=24280374; DOI=10.1186/1939-8433-6-4;
RA Kawahara Y., de la Bastide M., Hamilton J.P., Kanamori H., McCombie W.R.,
RA Ouyang S., Schwartz D.C., Tanaka T., Wu J., Zhou S., Childs K.L.,
RA Davidson R.M., Lin H., Quesada-Ocampo L., Vaillancourt B., Sakai H.,
RA Lee S.S., Kim J., Numa H., Itoh T., Buell C.R., Matsumoto T.;
RT "Improvement of the Oryza sativa Nipponbare reference genome using next
RT generation sequence and optical map data.";
RL Rice 6:4-4(2013).
RN [4]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
RC STRAIN=cv. Nipponbare;
RX PubMed=12869764; DOI=10.1126/science.1081288;
RG The rice full-length cDNA consortium;
RT "Collection, mapping, and annotation of over 28,000 cDNA clones from
RT japonica rice.";
RL Science 301:376-379(2003).
CC -!- FUNCTION: Involved in the metabolism of all major classes of plastid
CC RNAs. Required for efficient 3'-end processing of mRNAs and 3'-end
CC maturation of rRNA transcripts, but is not sufficient to mediate their
CC degradation. Mediates tRNA degradation. May function as a poly(A) mRNA
CC 3'-5' degrading phosphorylase (By similarity). {ECO:0000250}.
CC -!- CATALYTIC ACTIVITY:
CC Reaction=phosphate + RNA(n+1) = a ribonucleoside 5'-diphosphate +
CC RNA(n); Xref=Rhea:RHEA:22096, Rhea:RHEA-COMP:14527, Rhea:RHEA-
CC COMP:17342, ChEBI:CHEBI:43474, ChEBI:CHEBI:57930, ChEBI:CHEBI:140395;
CC EC=2.7.7.8;
CC -!- SUBCELLULAR LOCATION: Plastid, chloroplast {ECO:0000250}.
CC -!- SIMILARITY: Belongs to the polyribonucleotide nucleotidyltransferase
CC family. {ECO:0000305}.
CC -!- SEQUENCE CAUTION:
CC Sequence=AK065622; Type=Miscellaneous discrepancy; Note=Sequencing errors.; Evidence={ECO:0000305};
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DR EMBL; AP005840; BAD31776.1; -; Genomic_DNA.
DR EMBL; AP008213; BAF20896.1; -; Genomic_DNA.
DR EMBL; AP014963; BAT00221.1; -; Genomic_DNA.
DR EMBL; AK065622; -; NOT_ANNOTATED_CDS; mRNA.
DR RefSeq; XP_015647677.1; XM_015792191.1.
DR AlphaFoldDB; Q69LE7; -.
DR SMR; Q69LE7; -.
DR STRING; 4530.OS07T0168000-01; -.
DR PaxDb; Q69LE7; -.
DR PRIDE; Q69LE7; -.
DR EnsemblPlants; Os07t0168000-01; Os07t0168000-01; Os07g0168000.
DR GeneID; 4342497; -.
DR Gramene; Os07t0168000-01; Os07t0168000-01; Os07g0168000.
DR KEGG; osa:4342497; -.
DR eggNOG; KOG1067; Eukaryota.
DR HOGENOM; CLU_004217_2_2_1; -.
DR InParanoid; Q69LE7; -.
DR OMA; LHILDVM; -.
DR OrthoDB; 236073at2759; -.
DR Proteomes; UP000000763; Chromosome 7.
DR Proteomes; UP000059680; Chromosome 7.
DR Genevisible; Q69LE7; OS.
DR GO; GO:0009507; C:chloroplast; IEA:UniProtKB-SubCell.
DR GO; GO:0005829; C:cytosol; IBA:GO_Central.
DR GO; GO:0005739; C:mitochondrion; IBA:GO_Central.
DR GO; GO:0000175; F:3'-5'-exoribonuclease activity; IBA:GO_Central.
DR GO; GO:0004654; F:polyribonucleotide nucleotidyltransferase activity; IBA:GO_Central.
DR GO; GO:0003723; F:RNA binding; IEA:UniProtKB-KW.
DR GO; GO:0000958; P:mitochondrial mRNA catabolic process; IBA:GO_Central.
DR GO; GO:0000965; P:mitochondrial RNA 3'-end processing; IBA:GO_Central.
DR GO; GO:0006397; P:mRNA processing; IEA:UniProtKB-KW.
DR GO; GO:0006401; P:RNA catabolic process; IBA:GO_Central.
DR GO; GO:0006364; P:rRNA processing; IEA:UniProtKB-KW.
DR GO; GO:0008033; P:tRNA processing; IEA:UniProtKB-KW.
DR Gene3D; 2.40.50.140; -; 1.
DR Gene3D; 3.30.1370.10; -; 1.
DR Gene3D; 3.30.230.70; -; 2.
DR HAMAP; MF_01595; PNPase; 1.
DR InterPro; IPR001247; ExoRNase_PH_dom1.
DR InterPro; IPR015847; ExoRNase_PH_dom2.
DR InterPro; IPR036345; ExoRNase_PH_dom2_sf.
DR InterPro; IPR004087; KH_dom.
DR InterPro; IPR004088; KH_dom_type_1.
DR InterPro; IPR036612; KH_dom_type_1_sf.
DR InterPro; IPR012340; NA-bd_OB-fold.
DR InterPro; IPR012162; PNPase.
DR InterPro; IPR027408; PNPase/RNase_PH_dom_sf.
DR InterPro; IPR020568; Ribosomal_S5_D2-typ_fold.
DR InterPro; IPR022967; S1_dom.
DR InterPro; IPR003029; S1_domain.
DR PANTHER; PTHR11252; PTHR11252; 1.
DR Pfam; PF00013; KH_1; 1.
DR Pfam; PF01138; RNase_PH; 2.
DR Pfam; PF03725; RNase_PH_C; 1.
DR Pfam; PF00575; S1; 1.
DR SMART; SM00322; KH; 1.
DR SMART; SM00316; S1; 1.
DR SUPFAM; SSF50249; SSF50249; 1.
DR SUPFAM; SSF54211; SSF54211; 2.
DR SUPFAM; SSF54791; SSF54791; 1.
DR SUPFAM; SSF55666; SSF55666; 2.
DR TIGRFAMs; TIGR03591; polynuc_phos; 1.
DR PROSITE; PS50084; KH_TYPE_1; 1.
DR PROSITE; PS50126; S1; 1.
PE 2: Evidence at transcript level;
KW Chloroplast; Exonuclease; Hydrolase; mRNA processing; Nuclease;
KW Nucleotidyltransferase; Plastid; Reference proteome; RNA-binding;
KW rRNA processing; Transferase; Transit peptide; tRNA processing.
FT TRANSIT 1..66
FT /note="Chloroplast"
FT /evidence="ECO:0000255"
FT CHAIN 67..902
FT /note="Probable polyribonucleotide nucleotidyltransferase
FT 1, chloroplastic"
FT /id="PRO_0000420276"
FT DOMAIN 693..753
FT /note="KH"
FT DOMAIN 763..832
FT /note="S1 motif"
FT REGION 44..93
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT REGION 833..902
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 833..854
FT /note="Polar residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 879..902
FT /note="Polar residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
SQ SEQUENCE 902 AA; 97400 MW; 1635BFD20D871DA6 CRC64;
MLATPGALHH LLLLPPPPHT QLAFHHAVGG VPAALLPLPR PRRVAASAST SRRGGARRRA
AGARVRASVG EEAPPVVTEE ASTSGGPTKF STKIPVGDRH ILVETGHIGR QASASVMVTD
GETIVYSSVC LADTPNDPSD FFPMSVHYQE RLSAAGRTSG GFFKREGRAK DHEVLVCRLI
DRPLRPTMPK GFYYETQILS WVFSYDGIHS PDSLAITAAG VAMALSEVPN KQTIAGVRVG
MINDQFVVNP TTEQMDDSEL DLVMAGTDSA ILMIEGYCDF LTEEKLLQAV ETGQGAIREI
CKAIDGLVQK CGKKKMFDAI DLPPPELYRH VEDISGDELV KALQIKEKIL RRKALSALEE
KVITILSEQG YVAKDESSGV SENLADVIEE EDEDEVIVDG EVDEGEVHIK PVSRKPPRQL
FSEVDVKLVF KEVSSKFLRR RIVEGGKRSD GRSPCELRPI NSQCGLLPRA HGSALFTRGE
TQALAVVTLG DYQMAQRIDN LVDTEESKSF YLQYTFPPSS VGEVGRIGAP NRREIGHGML
AERALEPILP PEEDFPYTIR VESTITESNG SSSMASVCGG CLALQDAGVP IKFPVAGIAM
GLVLDTLEFG GDGKPLILSD ITGAEDASGD MDFKVAGNEN GISAFQMDIK VVGITLPIME
HALLQARDGR KHILNEMSKC SPPPAKVLSP YAPLIHVMKV KPNKVNLIIG SGGKTIKSII
EETGVDAIDT GDDGTVKITA RDLSSLEKSK AIIANLTMVP KVGEIYRNCE IKTIAPYGAF
VEIAPGREGL CHISELSSSW LAKAEDAFKV GDRIDVKLIE INDKGQLRLS SRALLPDANQ
ESSSKQQAGG STREKAPQKD NLVKMTTRRP RRKKQAEAST AENNATASPK DLASQGSEMG
TE
